Publications

For the interested reader publications from the Pacific Center for Genome Research can be accessed through the National Library of Medicine's PubMed website.

Below is a list of recent publications from the study.

2024

  1. Huo M, Rai SK, Nakatsu K, Deng Y, Jijiwa M. Subverting the Canon: Novel Cancer-Promoting Functions and Mechanisms for snoRNAs. Int J Mol Sci. 2024 Mar 2;25(5):2923. doi: 10.3390/ijms25052923. PMID: 38474168; PMCID: PMC10932220.
    https://pubmed.ncbi.nlm.nih.gov/38474168/
  2. Liu S, Zhu J, Zhong H, Wu C, Xue H, Darst BF, Guo X, Durda P, Tracy RP, Liu Y, Johnson WC, Taylor KD, Manichaikul AW, Goodarzi MO, Gerszten RE, Clish CB, Chen YI, Highland H, Haiman CA, Gignoux CR, Lange L, Conti DV, Raffield LM, Wilkens L, Marchand LL, North KE, Young KL, Loos RJ, Buyske S, Matise T, Peters U, Kooperberg C, Reiner AP, Yu B, Boerwinkle E, Sun Q, Rooney MR, Echouffo-Tcheugui JB, Daviglus ML, Qi Q, Mancuso N, Li C, Deng Y, Manning A, Meigs JB, Rich SS, Rotter JI, Wu L. Identification of proteins associated with type 2 diabetes risk in diverse racial and ethnic populations. Diabetologia. 2024 Sep 30. doi: 10.1007/s00125-024-06277-3. Epub ahead of print. PMID: 39349773.
    https://pubmed.ncbi.nlm.nih.gov/39349773/
  3. Zhu J, Wu K, Liu S, Masca A, Zhong H, Yang T, Ghoneim DH, Surendran P, Liu T, Yao Q, Liu T, Fahle S, Butterworth A, Alam MA, Vadgama JV, Deng Y, Deng HW, Wu C, Wu Y, Wu L. Proteome-wide association study and functional validation identify novel protein markers for pancreatic ductal adenocarcinoma. Gigascience. 2024 Jan 2;13: giae012. PubMed PMID: 38608280; PubMed PMCID: PMC11010651; DOI: 10.1093/gigascience/giae012.
    https://pubmed.ncbi.nlm.nih.gov/38608280/
  4. Zhu J, Liu S, Walker KA, Zhong H, Ghoneim DH, Zhang Z, Surendran P, Fahle S, Butterworth A, Alam MA, Deng HW, Wu C, Wu L. Associations between genetically predicted plasma protein levels and Alzheimer's disease risk: a study using genetic prediction models. Alzheimer's research & therapy. 2024 January 11;16(1):8. PubMed PMID: 38212844; PubMed Central PMCID: PMC10782590; DOI: 10.1186/s13195-023-01378-4.
    https://pubmed.ncbi.nlm.nih.gov/38212844/
  5. Liu S, Zhong H, Zhu J, Wu L. Identification of blood metabolites associated with risk of Alzheimer's disease by integrating genomics and metabolomics data. Mol Psychiatry. 2024 Apr;29(4):1153-1162. PubMed PMID: 38216726; PubMed PMCID: PMC11176029.DOI: 10.1038/s41380-023-02400-9. Epub 2024 Jan 12.
    https://pubmed.ncbi.nlm.nih.gov/38216726/
  6. Chen Y, Gao Z, Mohd-Ibrahim I, Yang H, Wu L, Fu Y, Deng Y. Pan-cancer analyses of bromodomain containing 9 as a novel therapeutic target reveals its diagnostic, prognostic potential and biological mechanism in human tumours. Clinical and translational medicine. 2024 February;14(2):e1543. PubMed PMID: 38303608; PubMed Central PMCID: PMC10835192; DOI: 10.1002/ctm2.1543.
    https://pubmed.ncbi.nlm.nih.gov/38303608/
  7. Liu S, Zhong H, Zhu J, Wu Y, Deng Y, Wu L. Regulome-wide association study identifies genetically driven accessible regions associated with pancreatic cancer risk. International journal of cancer. 2024 February 15;154(4):670-678. PubMed PMID: 37850323; PubMed Central PMCID: PMC10842605; DOI: 10.1002/ijc.34761.
    https://pubmed.ncbi.nlm.nih.gov/37850323/
  8. Zhong H, Liu S, Zhu J, Xu TH, Yu H, Wu L. Elucidating the role of blood metabolites on pancreatic cancer risk using two-sample Mendelian randomization analysis. International journal of cancer. 2024 March 1;154(5):852-862. PubMed PMID: 37860916; PubMed Central PMCID: PMC10843029; DOI: 10.1002/ijc.34771.
    https://pubmed.ncbi.nlm.nih.gov/37860916/
  9. Feng Z, Fu Y, Deng Y. Enhancing visibility and inclusivity of queer scientists to advance equality in academia. Patterns (N Y). 2024 Jun 14;5(6):101008. PubMed PMID: 39005484; PubMed PMCID: PMC11240169; DOI: 10.1016/j.patter.2024.101008.
    https://pubmed.ncbi.nlm.nih.gov/39005484/
  10. Kuehu DL, Fu Y, Nasu M, Yang H, Khadka VS, Deng Y. Use of Microalgae-Derived Astaxanthin to Improve Cytoprotective Capacity in the Ileum of Heat-Induced Oxidative Stressed Broilers. Animals (Basel). 2024 Jun 29;14(13):1932. PubMed PMID: 38998041; PubMed PMCID: PMC11240551; DOI: 10.3390/ani14131932.
    https://pubmed.ncbi.nlm.nih.gov/38998041/
  11. Qin Y, Maggio A, Hawkins D, Beaudry L, Kim A, Pan D, Gong T, Fu Y, Yang H, Deng Y. Whole-genome bisulfite sequencing data analysis learning module on Google Cloud Platform. Brief Bioinform. 2024 Jul 23;25(Supplement_1):bbae236. PubMed PMID: 39041913; PubMed PMCID: PMC11264297; DOI: 10.1093/bib/bbae236.
    https://pubmed.ncbi.nlm.nih.gov/39041913/

2023

  1. Nakatsu K, Jijiwa M, Khadka V, Nasu M, Deng Y. sRNAfrag: a pipeline and suite of tools to analyze fragmentation in small RNA sequencing data. Briefings in bioinformatics. 2023 November 22;25(1). PubMed PMID: 38243693; PubMed Central PMCID: PMC10796253; DOI: 10.1093/bib/bbad515.
    https://pubmed.ncbi.nlm.nih.gov/37662282/
  2. Nasu M, Khadka VS, Jijiwa M, Kobayashi K, Deng Y. Exploring Optimal Biomarker Sources: A Comparative Analysis of Exosomes and Whole Plasma in Fasting and Non-Fasting Conditions for Liquid Biopsy Applications. Int J Mol Sci. 2023 Dec 27;25(1):371. PubMed PMID: 38203541; PubMed PMCID: PMC10779159; DOI: 10.3390/ijms25010371.
    https://pubmed.ncbi.nlm.nih.gov/38203541/